Introduction

Podocyte injury is a key determinant of diabetic nephropathy and glomerulosclerosis, the leading causes of chronic kidney disease in patients starting renal replacement therapy (1). However, a comprehensive molecular pathogenetic model for diabetic nephropathy and progressive glomerulosclerosis has not been established, hampering the development of effective therapeutic approaches that prevent the progression to end-stage renal disease (ESRD). The mammalian target of rapamycin (mTOR) signaling cascade controls cellular growth, survival, and metabolism. The serine/threonine kinase mTOR is the catalytical subunit of 2 distinct complexes, mTOR complexes 1 and 2 (mTORC1 and mTORC2), that can be distinguished by their unique composition and different substrates. mTORC1 with its essential components mTOR, mLST8, and rapamycin-sensitive adaptor protein of mTOR (Raptor) promotes protein synthesis and an increase in cell size (2). The activation of mTORC1 predominantly results in the phosphorylation of 2 downstream targets, the ribosomal S6Kinase (S6K) and the eukaryotic translation initiation factor 4E-binding protein (4E-BP), which stimulate ribosome biogenesis and protein translation to increase cell mass (3, 4). Drosophila mutants for TOR and S6K exhibit a significantly reduced body size while cell numbers are unaltered (5, 6). The essential core of the rapamycin-insensitive complex (mTORC2) comprises mTOR, mSIN1, mLST8, and the rapamycin-insensitive subunit Rictor; mTORC2 controls cell survival and cytoskeletal organization (2). mTORC2 phosphorylates AKT at a critical site (7). In addition, mTORC2 phosphorylates conventional and atypical forms of protein kinase C (7). mTOR signaling has recently been implicated in inflammatory, metabolic, degenerative, and proliferative human diseases (2, 8). However, the function of mTOR in the glomerulus remains elusive and the current data are controversial (9): while some studies suggested that mTOR inhibition by rapamycin might delay or reverse glomerulopathies (10–14), other studies documented an increase in proteinuria and glomerulosclerosis in patients and animal models following rapamycin treatment (9, 15–17). In addition, most studies so far have been based on pharmacological inhibition of mTORC1 by rapamycin. Since rapamycin affects resident as well as infiltrating cells in the kidney, this approach does not allow distinguishing the specific role of blocking mTOR in the different cell types. Furthermore, off-target effects have been described with long-standing application of rapamycin, most notably the inhibition of mTORC2 (18). Therefore, tissue-specific analysis of mTOR signaling is required for an in-depth understanding of the functional and cell autonomous role of mTOR in diabetic nephropathy and other glomerular diseases. Here, we present a comprehensive genetic analysis of mTOR-associated regulatory events to reveal the fundamental role of this pathway in glomerular development, maintenance, and disease.

Results

Podocyte specific loss of mTORC1 causes proteinuria and progressive glomerulosclerosis. The clinical hallmark of podocyte injury is proteinuria, which has been documented under various acquired conditions including treatment with the mTORC1 inhibitor rapamycin (9, 15–17). To define the podocyte intrinsic role of mTORC1 in a model system, we generated podocyte-specific mTORC1 knockout mice (RaptorΔpodocyte) by crossing Raptor-floxed mice (Raptorflox/flox) with a NPHS2.Cre deleter strain (refs. 19–21 and Figure 1A). Next, we biochemically analyzed the mTOR signaling cascade in RaptorΔpodocyte mice. Lysates from purified glomeruli of RaptorΔpodocyte mice and control littermates were compared. Although podocytes account only for about 30% of all glomerular cells, podocyte-specific deletion resulted in a remarkable reduction of glomerular raptor protein in RaptorΔpodocyte mice, whereas the total protein levels of mTOR remained unchanged (Figure 1, B and C). In agreement with the glomerular deletion of Raptor, the phosphorylation of the mTORC1 downstream target S6 was significantly decreased, by about 50% (Figure 1, B and C). In addition, phosphorylation of Akt on residue Thr308 was strongly increased in RaptorΔpodocyte mice (Figure 1, B and C). Activation of S6K by mTORC1 causes feedback inhibition of the insulin/IGF1 pathway by affecting the levels and the phosphorylation of IRS-1 (22, 23). Thus, activation of Akt on residue Thr308 in Raptor-deficient podocytes is probably due to the failure to activate S6K and to prevent phosphorylation of IRS-1. The glomerular protein levels of Rictor as well as the phosphorylation of downstream targets of mTORC2 such as PKCε and Akt S473 were not altered (Figure 1, B and C). Although these data indicate that mTORC2 is not upregulated in Raptor-deficient glomeruli, we cannot exclude that mTORC2 activity might be locally activated in the podocyte. RaptorΔpodocyte mice were born at the expected Mendelian ratios. At up to 2 weeks of age, RaptorΔpodocyte mice were indiscernible from their WT littermates regarding albuminuria levels (Figure 1D), weight (Figure 1E), and glomerular histology (Supplemental Figure 1; supplemental material available online with this article; doi:
10.1172/JCI44774DS1). However, at 4 weeks of age, RaptorΔpodocyte mice developed significant albuminuria, which increased at 8 weeks of age (albuminuria at 8 weeks of age: urinary albumin/creatinine: mean 23.32; urinary albumin: mean 1088.90 mg/l) (Figure 1D). The proteinuria was associated with weight loss and increased lethality after 8 months of age (Figure 1, E and F).

In histological sections, RaptorΔpodocyte mice displayed progressive glomerulosclerosis and proteinaceous casts in dilated tubules; the glomerulosclerosis was most prominent in juxtamedullary glomeruli (Figure 2, A and B, and ref. 24). The immunofluorescence expression patterns of the slit diaphragm proteins Nephrin, Podocin, and Par3 in nonsclerosed glomeruli of RaptorΔpodocyte mice were regular at 4 months, suggesting that the glomerulopathy was not primarily caused by reduction or redistribution of slit diaphragm protein expression (Supplemental Figure 2). TEM and SEM ultrastructural analyses revealed progressive podocyte foot process broadening and effacement, documented at 4 and 12 months of age (Figure 2, C–E). These data indicate that mTORC1 is required to maintain podocyte function and glomerular architecture.

Time-dependent deletion of Raptor indicates the importance of mTORC1 activity during glomerular development. Growth of an organ during development can be controlled by alterations in either the number or the size of cells. The 2 mechanisms are fundamentally different and require distinct regulation, whereby mTORC1 is centrally involved in controlling cell size. The convergence of multiple growth factor–initiated pathways on mTORC1 likely allows its participation in multiple developmental processes, underlined by the absolute requirement for mTORC1 during early embryonic development (25, 26). In agreement with this, morphometric analysis of 8-week-old RaptorΔpodocyte mice indicated that glomeruli and podocytes appear to be smaller in RaptorΔpodocyte mice than in WT controls (Supplemental Figure 3). To determine whether podocytes might be particularly sensitive to the loss of mTORC1 activity during glomerular development, we used a conditional expression model (Tet-On system) in which the target gene is deleted only in the presence of a tetracycline derivative. In this system, the reverse tetracycline-controlled transcriptional activator (rtTA) is placed under the control of the NPHS2 promoter (27). A second transgene uses the tetO promoter elements upstream of a minimal CMV promoter to drive expression of Cre recombinase. We used this strategy to delete the Raptor gene either during glomerular development or in adult mice. As in the RaptorΔpodocyte mice, all transgenes for this experiment were transferred to a pure C57BL/6 strain (Figure 3A). Doxycycline was added to the drinking water of pregnant female animals and continued throughout gestation and nursing to initiate Cre-mediated excision of Raptor in developing glomeruli. To initiate Cre-mediated excision of Raptor in mature glomeruli, doxycycline was added to the drinking water of 8-week-old mice. Western blot analysis confirmed the reduction of glomerular raptor protein levels in mice induced in utero or after 8 weeks of age (Figure 3, B and C). We further assessed the efficiency of doxycycline-regulated Cre expression by crossing the double-transgenic NPHS2.rtTA;tetO.Cre mice to the mT/mG transgenic reporter strain, which carries a loxP-flanked Tomato cassette (28). Upon Cre-mediated excision of membrane-targeted tandem dimer Tomato (mT), an alternate reporter protein, membrane-targeted GFP (mG), is expressed. Immunofluorescence of kidney sections indicated that almost all podocytes were positive for the excision event in early-induced mice (Figure 3D), whereas most, but not all (ca. 80%) podocytes were positive for the excision event in the late-induced (8 weeks) group. This finding is in agreement with published work documenting a high but not complete excision rate of target genes in adult mice using the Tet-On system (29), though the Tet-On system–induced gene deletion in these cases caused severe glomerular defects in adult mice (27, 29). As expected, the inducible strategy recapitulated the phenotype observed after conventional Cre excision when doxycycline was administered to pregnant female animals to initiate early Cre expression in Raptorflox/flox;NPHS2.rtTA;tetO.Cre mice (Figure 3E). However, when Raptor deletion was induced in adult mice, the levels of protein excretion were higher compared with controls, but did not reach statistical significance (albumin/creatinine ratios 2 months after doxycycline induction: induced Raptorflox/flox;NPHS2.rtTA;tetO.Cre: mean = 0.23 ± 0.07; control littermates mean = 0.13 ± 0.06; n = 13 each) (Figure 3E). Histological alteration in the doxycycline-treated Raptorflox/flox;NPHS2.rtTA;tetO.Cre embryonic C57BL/6 mice resembled those of the Raptorflox/flox;NPHS2.Cre animals, whereas histology of the late-induced (8 weeks, C57BL/6 background) did not depict any glomerulosclerosis, although some milder glomerular lesions such as glomerular synechia could be observed (Figure 3G). In context of the high interindividual variability of proteinuria in patients receiving mTOR inhibitors, we speculated that the genetic background as modifying factor might contribute to the maintenance phenotype of Raptor deficiency in adult mice. To prove this hypothesis, we transferred Raptorflox/flox;NPHS2.rtTA;tetO.Cre mice to an ICR background (IcrTac:ICR; Taconic USA), which is known to be more sensitive toward glomerular diseases than that of C57BL/6 mice. Strikingly, in these mice, Raptor deletion at 8 weeks of life induced significant proteinuria (Figure 3F). Taken together, these data indicate that mTORC1 is especially important for podocyte development and growth. Additionally mTORC1 is required for glomerular maintenance under homeostatic conditions, whereby this effect is modified by the genetic background of mice.

Synergistic action of mTORC1 and mTORC2 complexes are required for glomerular homeostasis. mTORC1 and mTORC2 phosphorylate different substrates to regulate distinct cellular functions. In contrast to mTORC1, mTORC2 is largely rapamycin-insensitive and phosphorylates cellular targets such as AKT, SGK1, and PKC to control cell survival and cytoskeletal organization (2). However, these effects vary among different cell types and the function of mTORC2 in the glomerulus has not been defined. In podocyte-specific mTORC2-deficient mice (RictorΔpodocyte) (Figure 4A), the level of Rictor and the activation state of PKCε, which is a well-characterized substrate of mTORC2 (30), was significantly reduced (Figure 4B). RictorΔpodocyte mice did not display any obvious clinical (Figure 4C), histological (Figure 4D), or ultrastructural abnormalities (Figure 4, E and F) during a 2-year follow-up. However, RictorΔpodocyte mice exposed to stress such as BSA overload (31, 32) developed significantly higher transient albuminuria than control littermates (Figure 4G), suggesting that mTORC2 might play a role in podocyte adaptation and foot process reorganization in response to stress.

mTORC1 activation is a molecular signature of diabetic nephropathy. Recent studies suggest that the mTOR pathway plays an important role in mechanisms underlying the progression of glomerular diseases (10–14). Many glomerular diseases such as diabetic nephropathy are preceded by glomerular hypertrophy and enlargement of podocytes (33, 34). Since mTOR controls cell size (2), these findings suggest an involvement of mTOR; however, conclusive evidence demonstrating elevated mTORC1 activity in podocytes of diabetic models is lacking. To test the hypothesis that mTOR activation is associated with chronic glomerular diseases, we took advantage of the fact that mTORC1 directly phosphorylates and activates transcription factors, thereby directly increasing mRNA levels of some well-described gene targets such as the SREBP, VEGF, and mitochondrial target genes. We first analyzed transcriptional targets of mTOR in microdissected glomeruli from patients with diabetic nephropathy (35). To circumvent the detection of rather unspecific expression signals at late stages of diabetic nephropathy potentially reflecting changes due to glomerular scarring, we analyzed the glomerular gene expression profile from Pima Indians at very early stages of diabetic nephropathy (n = 22) and compared the data to nonprogressive proteinuric states such as that in minimal change disease (MCD) (n = 5) and healthy controls (living allograft donors [LD]; n = 18). Strikingly, both mTORC1 target genes and mTOR mRNA itself were induced in progressive diseases, whereas transcript levels were unchanged or even repressed in MCD compared with controls (Figure 6A). Consistent with this finding, immunofluorescence staining of biopsy samples for phosphorylated S6 (pS6) as a marker of mTORC1 activity confirmed increased pS6 levels in podocytes of patients with diabetic nephropathy (Figure 6, B and C). Profound activation of mTORC1 and phosphorylation of S6 was also observed by immunofluorescence staining and Western blot analysis of pS6 in an animal model of diabetic nephropathy (streptozotocin [STZ] model) (Figure 6, D–F), confirming the association of mTORC1 activation and diabetic nephropathy.

Discussion

Loss of glomerular function is the leading cause of progressive kidney diseases resulting in ESRD. The podocyte resembles the most vulnerable component of the glomerulus, and insults that compromise the function of this specialized epithelial cell are associated with proteinuria and renal failure. The selective mTORC1 inhibitor rapamycin can cause proteinuria in both humans and animal models of kidney disease, but also has been shown to ameliorate glomerular disease, suggesting a pivotal and incompletely understood role in podocyte homeostasis. The genetic dissection of mTOR function provides the tools to dissect the opposing effects of mTOR activity on the integrity of the glomerular filter and the progression of podocyte disease, providing a molecular framework to correctly utilize mTOR inhibitors in the treatment of progressive glomerulopathies.

Role of mTOR signaling for glomerular development and maintenance. Inhibition of mTORC1 has frequently been reported to cause proteinuria in patients (15). Rapamycin increases the risk for proteinuria in chronic allograft nephropathy (17) and is associated with increased podocyte apoptosis and development of focal segmental glomerulosclerosis (FSGS) after renal transplantation (16, 17). Utilizing podocyte-specific mTOR-deficient mice, our data document that mTOR function in podocytes is essential for the integrity of the filtration barrier. Loss of mTORC1 results in progressive glomerulosclerosis; this is further aggravated by the additional deletion of mTORC2, uncovering an unknown role for mTORC2 in podocyte homeostasis. Strikingly, the mTORC1 loss-of-function phenotype is similar to the phenotype observed in podocyte-specific insulin receptor–deficient mice (37). Together these data underline the importance of the growth hormone receptor PI3K-mTORC1 axis for podocyte biology. Intriguingly, podocytes seem to be particularly sensitive to mTORC1 deletion during glomerular development, indicating that mTORC1 is of particular importance during podocyte growth and adaptation. mTORC1 regulates cell growth by maintaining the appropriate balance between anabolic processes, such as macromolecular synthesis and nutrient storage, and catabolic processes, such as autophagy and the utilization of energy stores. With the transition to the capillary loop state, the maturing podocytes lose their capability of cell replication. Thus, podocytes can only increase their size to compensate for further glomerular expansion during glomerular development. Podocytes need to cover the surface of the glomerular basement membrane (GBM); after the terminal differentiation of podocytes, any further increase in filtration area will require a compensatory cell growth of podocytes. Our data suggest that activation of mTORC1 allows the podocyte to participate in glomerular expansions during kidney development. In agreement with a role of mTORC1 for podocyte plasticity and growth, we observed the most pronounced glomerulosclerosis in juxtamedullary glomeruli of mTORC1-knockout mice, which represent the largest glomeruli in the kidney (38–41). In mature glomeruli, mTORC1 might be particularly important when podocytes have to adjust to environmental changes such as podocyte loss or increased mechanical pressure. In addition, by revealing the impact of different genetic mouse backgrounds on the phenotype of mTORC1 deletion in adult mice, our data point to a critical role of genetic modifiers for mTOR function. In patients receiving mTOR inhibitors, the high interindividual variability in respect to the development of proteinuria and the observation that only a very small fraction of patients develop progressive proteinuria or FSGS have been puzzling. Our animal studies indicate that genetic modifiers and environmental factors compromising podocyte function are likely to predispose patients to the development of a rapamycin-dependent glomerulopathy precipitating the high interindividual variability of mTOR inhibitor–dependent proteinuria in humans.

Role of mTOR signaling in glomerular disease. Although mTOR signaling is required for podocyte development and regeneration, our data provide evidence that dysregulated activity of mTORC1 is a characteristic feature of diabetic nephropathy. Early diabetic nephropathy is characterized by hypertrophy of the glomerulus with enlargement of glomerular cells (33), especially podocytes (34). Since cell mass is essentially controlled through the mTOR pathway (2, 42), these findings suggest a deregulation of the mTOR pathway. Interestingly, mTORC1 activity in mature podocytes is very low under basal conditions. However, already at early stages of diabetes, we detected a significant activation of mTORC1 in mice and humans. In response to mTOR activation, podocytes change in a fairly stereotypical manner with cell hypertrophy, foot process effacement, and eventually detachment from the GBM. Previous reports have shown that excessive podocyte hypertrophy culminates in reduced podocyte numbers and glomerulosclerosis (43, 44). Although the precise molecular mechanisms of how mTORC1 deregulation might affect the cellular integrity besides podocyte hypertrophy need to be delineated, recent findings suggest that mTOR hyperactivation is associated with Notch activation, which has been shown to drive podocyte disease (45–47). In addition, autophagy is known to be negatively regulated by mTORC1 activity (7), and we have previously shown that suppression of autophagy sensitizes podocytes toward glomerular diseases, which likely contributes to podocyte injury in diabetes (48).

Another mechanistic link comes from recent insights into the role of mTOR signaling in neurons. Neurons, like podocytes, functionally depend on the specification of highly specialized cellular processes. In agreement with our findings, it was recently demonstrated that the mTOR pathway confines the polarized neuronal architecture and that mTOR hyperactivation contributes to neurological disorders (49).

In summary, our data, using defined genetically modified mouse models, demonstrate that mTOR signaling plays a major role in podocyte homeostasis. Both mTORC1 and mTORC2 are needed for podocyte development and podocyte maintenance. Glomerular disease activates mTOR in podocytes, likely in an attempt to maintain podocyte homeostasis. However, this mTOR activation, which may provide some short-term benefits, ultimately causes proteinuria and glomerulosclerosis and facilitates disease progression. Genetically reducing mTOR levels by eliminating 1 Raptor allele dramatically prevents the consequences of excessive mTOR activation, suggesting that correctly timed inhibition of mTOR activity may prevent podocyte injury and ameliorate the progression of common glomerular diseases such as diabetic nephropathy.

Methods

Mice. Mice, in which exon 6 of the Raptor gene or exons 4 and 5 of the Rictor gene, respectively, are flanked by 2 loxP sequences, have been previously reported (20, 21). NPHS2.Cre mice were provided by Lawrence Holzman (Renal, Electrolyte, and Hypertension Division, University of Pennsylvania School of Medicine, Philadelphia, Pennsylvania, USA) (19). Raptor-floxed mice (Raptorflox/flox) or Rictor-floxed mice (Rictorflox/flox) were crossed with NPHS2.Cre mice to generate podocyte-specific Raptor knockout mice Raptorflox/flox;NPHS2.Cre (RaptorΔpodocyte) or podocyte-specific Rictor-knockout mice Rictorflox/flox;NPHS2.Cre (RictorΔpodocyte) respectively. Heterozygous or NPHS2.Cre–negative litter mates served as controls. To generate podocyte-specific Raptor plus Rictor double-knockout mice (Raptor/RictorΔpodocyte), Raptorflox/flox;NPHS2.Cre were crossed with Rictorflox/flox;NPHS2.Cre mice. All Raptorflox/flox, Rictorflox/flox, and Raptor/RictorΔpodocyte mice were crossed on a pure C57BL/6 background. For all STZ experiments, mice were backcrossed for 5 generations on an ICR background, which sensitizes the mice toward the development of diabetic nephropathy (IcrTac:ICRl Taconic USA).

NPHS2.rtTA;tetO.Cre mice were provided by Susan Quaggin (Samuel Lunenfeld Research Institute, Mount Sinai Hospital, University of Toronto, Toronto, Ontario, Canada) (27). To generate doxycycline-inducible podocyte-specific Raptor-knockout mice (Raptorflox/flox;NPHS2.rtTA;tetO.Cre), Raptor-floxed mice (Raptorflox/flox) were crossed with NPHS2.rtTA;tetO.Cre mice; tetO.Cre negative littermates served as control. NPHS2.rtTA;tetO.Cre mice were transferred on a pure C57BL/6 background. For generation of NPHS2.rtTA;tetO.Cre mice on an ICR background, which are more sensitive toward glomerular disease, mice were backcrossed for 5 generations (IcrTac:ICR; Taconic). For the induction of Raptor deletion, mice received doxycycline hydrochloride (Sigma-Aldrich) via drinking water (2 mg/ml with 5% sucrose, protected from light) during pregnancy and nursing (embryonic deletion) or at 8 weeks of age (adult deletion). mT/mG;NPHS2.rtTA;tetO.Cre reporter mice were generated by crossing mT/mG mice (28) with NPHS2.rtTA;tetO.Cre mice and were provided by Nicola Wanner (Renal Division, University Hospital Freiburg). All animal studies were approved by the Committee on Research Animal Care, Regierungspräsidium, Freiburg.

Blood pressure analysis. Blood pressure analysis was performed using a Panlab LE5001 control unit using a single animal heating unit and a LE5160MM transducer and cuff. Animals were accommodated to the equipment for 3 days before measurements were taken. Blood pressure values represent the mean systolic arterial pressure of 3 consecutive measurements for each mouse.

Histological analyses. Quantitative stereological analyses of kidney sections were performed as described previously (34). Briefly, the mean glomerular volume (mean v(Glom)) was determined from the mean glomerular profile area (mean A(Glom)) (52), which was obtained by measuring 100 systematically sampled glomerular profiles per animal. The physical dissector principle was applied for counting podocytes (Q–) as described, using semithin sections (53, 54). The numerical density of podocytes in glomeruli (NV(P/Glom)) was calculated as the quotient of the sum of Q– divided by the dissector volume. The number of podocytes per glomerulus (N(P,Glom)) was calculated multiplying NV(P/Glom) and mean v(Glom). The volume fraction of podocytes per glomerulus (Vv(P/Glom)) was determined by point counting method. The mean podocyte volume (mean v(P)) was calculated dividing Vv(P/Glom) by NV(P/Glom). The mesangial and capillary volume fractions (Vv(Mes/Glom) and Vv(Cap/Glom), respectively) were determined on PAS-stained plastic sections by point counting, using a computer-assisted stereology system (NewCast; Visiopharm). Sixteen to 30 whole glomerular profiles were evaluated (corresponding to 205–471 reference points). The total volume of mesangium or capillaries per glomerulus (V(Mes,Glom) and V(Cap,Glom), respectively) was obtained by multiplying the respective volume fraction by mean v(Glom). All results were corrected for embedding shrinkage (34).

Immunofluorescence staining of kidney sections. Kidneys were frozen in OCT compound and sectioned at 6 μm (Leica Kryostat). The sections were fixed with 4% paraformaldehyde, blocked in PBS containing 5% BSA, and incubated for 1 hour with primary antibodies as indicated. After PBS rinse for several times, fluorophore-conjugated secondary antibodies (Invitrogen) were applied for 30 minutes. Images were taken using a Zeiss laser scan microscope equipped with a ×63 water immersion objective or a Zeiss fluorescence microscope equipped with ×20 and ×40 oil immersion objectives.

Quantification of immunofluorescence results. Images were acquired by a Zeiss Axioscope 40FL microscope, equipped with AxioCam MRc5 digital video camera and immunofluorescence apparatus (Carl Zeiss SpA). Images were recorded using AxioVision software 4.3 and analyzed by the AxioVision analysis module (Carl Zeiss SpA). Glomeruli were selected as region of interest (ROI), and a macro (consisting of a color threshold procedure, followed by filtering and Danielsson’s algorithm) was applied to select stained areas and to calculate their relative quantity as a percentage of the ROI area.

Isolation and characterization of adult mouse glomeruli. Glomeruli were isolated using Dynabead perfusion and were glass-glass–homogenized in lysis buffer (containing 20 mM CHAPS and 1% Triton X-100) (55). After centrifugation (15,000 g, 15 minutes, 4°C) protein concentration was determined by Dc Protein-Assay (Bio-Rad). Equal amounts of protein were separated on SDS page. Western blots were densitometrically analyzed using LabImage software. Ratios of protein band intensity to loading control protein band intensity are shown (Figures 1C, 3C, 6F, and 7C).

Patients and microarray analysis. Human renal biopsies from patients and controls were collected with informed consent within the framework of the European Renal cDNA Bank — Kröner-Fresenius Biopsy Bank (35) and the Pima Indian Diabetes Study (56), respectively. The former biopsy bank has been approved by the cantonal ethics committee of Zurich, Switzerland, the latter by the National Institute of Diabetes and Digestive and Kidney Diseases in Bethesda, Maryland, USA. The approval allows exclusively the report of aggregate data; no individual data are reported or deposited. Glomeruli were microdissected, total RNA isolated, linearly amplified, and hybridized to Affymetrix HG-U 133 Plus 2.0 microarrays as reported previously (57). A single probe-based analysis tool, ChipInspector (Genomatix Software GmbH) was used for transcript annotation, total intensity normalization, significance analysis of microarrays, and transcript identification based on significantly changed probe signals (58). Only probes that match uniquely to the genome and to at least 1 transcript (or overlapping transcripts) were retained for further analysis. The input data for the SAM analysis were single probe values, and the resulting probes with significant alteration of signal levels were subsequently matched with the corresponding transcripts (which may be more than 1 per gene). No fold change cut-off was applied, but minimum coverage of probes with significant alteration per transcripts was set as 3. This permitted the detection of transcript alterations even below conventional fold change cut-off levels. Shown are the fold changes of the transcripts with the highest probe coverage of each gene.

Statistics. Data are expressed as the mean ± SEM. All shown data reflect a minimum of 3 subjects per test. Statistical comparisons were performed using 2-tailed Student’s t test if not stated otherwise. Differences with P < 0.05 were considered significant.

Supplemental data

Acknowledgments

We thank Dörte Thiel, Charlotte Meyer, (Renal Division, University Hospital Freiburg), Elisabeth Wieser, Brigitte Langer (Pathology, Medical University Vienna), Angela Siebert, Heike Sperling (Veterinary Pathology, Munich), and Evelyn Wätzig (Pathology, University Hospital Freiburg) for excellent technical assistance. We thank Michael Köttgen and Sebastian Arnold for carefully reading the manuscript. We thank all participating centers of the European Renal cDNA Bank — Kröner-Fresenius biopsy bank and their patients for their cooperation. Active members at the time of the study are listed in ref. 58 and at
http://www.forschungsportal.ch/unizh/p9291.htm. This study was supported by the Intramural Research Program of the National Institute of Diabetes and Digestive and Kidney Diseases (NIDDK) (to R.G. Nelson; NIDDK P30 DK081943 to M. Kretzler), the Swiss National Science Foundation (32-122439/1 to C.D. Cohen) and the Else Kröner-Fresenius-Stiftung (A62/04 to C.D. Cohen), the NIH (DK083491 to K. Inoki), Deutsche Forschungsgemeinschaft (DFG) grants (HU 1016/2-1, SFB 592 B10, and P7-KFO 201 to T.B. Huber), the Excellence Initiative of the German Federal and State Governments (EXC 294), and BMBF Gerontosys-Project NephAge.

Footnotes

Conflict of interest: The authors have declared that no conflict of interest exists.